PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

OGLUM06G23280.3

Organism

Oryza glumaepatula

Taxonomic ID

40148

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C3H

Protein Properties

Length: 1824aa MW: 199303 Da PI: 7.4589

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM06G23280.3	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.2	9.1e-06	1695	1716	6	27
-SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHgp 27 C+ f +tG+C+ G+rCk +H++ OGLUM06G23280.3 1695 CPVFEATGECPQGSRCKLHHPK 1716 *****************99985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.037	1585	1614	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.9	1585	1613	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	14	1614	1638	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.859	1618	1639	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.235	1640	1666	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0094	1640	1665	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.76	1667	1694	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.7E-5	1667	1693	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1	1694	1716	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	8.437	1695	1717	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0043484	Biological Process	regulation of RNA splicing
GO:0060149	Biological Process	negative regulation of posttranscriptional gene silencing
GO:0016607	Cellular Component	nuclear speck
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1824 aa Download sequence Send to blast
MVHEGFSIHS DSKVSRKIQM PTQMALPGSP HGTSAGYARR APQKVAPSRV SVWHRIEENP 60 AMYEPSSPLP HMPKEVHVSP CKSNNVAPAS KELASVISVD CRGKSADGND GDSNTGTKKN 120 PVKKNEKVLA SVLVKPPMEP KEKEVAAKKM LKKPDKVQKN AVHSNIRSLV STPCPGAGAK 180 KVKKIVIKKI VRKINGKGNQ NSTPVVSEKR DGIDANACEK EEGEITTSSF EKDVISAHDP 240 IAVSDTAGFG NAVNDQKQKN TNFTNPSGRN AASANGSMEI PDPPNGSGSA HPGKEEVLSP 300 KNPVDNSNAS LVVEPIEVLE KSGTEHPRKE HDMSSIGSGV NDAFADANNH TQKEVGEMNV 360 TVAINSVRVS DAREVPRCDD SSMEESKVPK DVDANNAVCM DGVASNCDTT EVCGNEDARR 420 ECGKKLIGIN DEKAFLLNNS ARSSSTSDTC MTAVEGAQKK EGIILTGSSE KSIGFLGDSV 480 GTHRTTEFGA SKDAPNEGDD MPSHPSEKDF MSLNSCGGLN YTEVSEKEDI QEKEDRVPME 540 SIVACTSSGN EDIQVNEGRK PMELSEANAF SGSGDSQGKE CRIPMGSSET NTSSVNHVNA 600 SNEKDFSLSE DTQKKESHRP IESCENTTFE IMHHEEAPST EEVITGVSLG RKVAEGPTRS 660 NERCSGARGN SATTLKFGLA CATKDNQMED LLNNRTALNE TDDPLDAEDS PVFVPPSSRN 720 VESTYASPLY DPMEDSTSDG ILNIGLGRNT TSKAAELLDL HRDHISSEND SLIHSRGTSS 780 VSGNREQSVP TALTLGSNIY FSSAETDDRP EERHELVVEG QQGLTVETTS KLDSPGKIEV 840 LNGAGFISTG IQNWLSLPPS INSMEMSGQF LNNGFTVSKG RLGLDQSMDD ATSMSQDHDI 900 AQDMDQRGSE DAFFSQDHSI RLCGSDLPHS HLLAPKESSM NGEDQSGIVL TGLHPSSSVN 960 VLGHYGYQTD DIPVDNLNKL PSALESSDAM DADQVSSQVC VNPDHTNDSN TENAGVESNA 1020 KQDLLSSWIE AIVSEAKKEH PPCKSTPLTV GLPDKLLEPK DSDRKTLLET VVPSAVKSPQ 1080 INFASSTLQK VAPKQVTLPS SSREPTRANQ NARHRTWHRG NIASSSSSLH ASQPLGLPPK 1140 LPPKKNDKAQ NSYIRKGNAL IRNPSNGNHP HSSTGHDTQN KLNKPVVRRS MNFVRTADTK 1200 DLANSNISVE RPKTPPLPLH TKSSCPTTLL EPLSQTLQKQ HGHEAEKEDL TGQPKSGVDN 1260 SSIKSAQKSE PSDPSKVVYV RPKSNQLVAA QRQHPIDLVN SPTDKILSLQ APIASDLYLK 1320 KRKNQIVLSS CSPSDGLSTK ETLPAENSNS EEKKDLMIAC SISGIPGVKD RPQKALQTTN 1380 NVGRFSHVWT LNGQQPQRKG FMGSSHMNAF PRILPWKRKI FCKNFRSSHM SNVSSIRIVR 1440 KLLQTRKRDM IYTVSTDGFS LRKSGVLSVG GSSLKWSRSL EKRSQKVNKE ATLALAEVER 1500 RKREKRKRQS LHDKGGNDHQ FESVTGNQLR NSRQSSSDLR KPSTCNEYVR VSKGNQLVRN 1560 PKNVIRMLAS DKVRWSLHTV RSRLAKKQQY CQFFTRFGEC KKPRGKCPYI HDRAKVTICT 1620 KFLKGLCSNT SCKLTHKVLP ERMPDCSYFL RGLCTNIACP YRHVKVNLNA PVCEDFLKGY 1680 CAYGDECHKK HSYVCPVFEA TGECPQGSRC KLHHPKSKVK SKSRRPDFLQ NSSWGRYFDA 1740 SIDHQDETRK VSLDEDEREK PQRVFSDGDL GFISLDDDAD EDVTALDASD DIPLMELDSG 1800 DLSAQTDNLD ALIKPLRIMR TARV

Sequence ? help Back to Top

Protein Sequence Length: 1824 aa Download sequence Send to blast

MVHEGFSIHS DSKVSRKIQM PTQMALPGSP HGTSAGYARR APQKVAPSRV SVWHRIEENP  60
AMYEPSSPLP HMPKEVHVSP CKSNNVAPAS KELASVISVD CRGKSADGND GDSNTGTKKN  120
PVKKNEKVLA SVLVKPPMEP KEKEVAAKKM LKKPDKVQKN AVHSNIRSLV STPCPGAGAK  180
KVKKIVIKKI VRKINGKGNQ NSTPVVSEKR DGIDANACEK EEGEITTSSF EKDVISAHDP  240
IAVSDTAGFG NAVNDQKQKN TNFTNPSGRN AASANGSMEI PDPPNGSGSA HPGKEEVLSP  300
KNPVDNSNAS LVVEPIEVLE KSGTEHPRKE HDMSSIGSGV NDAFADANNH TQKEVGEMNV  360
TVAINSVRVS DAREVPRCDD SSMEESKVPK DVDANNAVCM DGVASNCDTT EVCGNEDARR  420
ECGKKLIGIN DEKAFLLNNS ARSSSTSDTC MTAVEGAQKK EGIILTGSSE KSIGFLGDSV  480
GTHRTTEFGA SKDAPNEGDD MPSHPSEKDF MSLNSCGGLN YTEVSEKEDI QEKEDRVPME  540
SIVACTSSGN EDIQVNEGRK PMELSEANAF SGSGDSQGKE CRIPMGSSET NTSSVNHVNA  600
SNEKDFSLSE DTQKKESHRP IESCENTTFE IMHHEEAPST EEVITGVSLG RKVAEGPTRS  660
NERCSGARGN SATTLKFGLA CATKDNQMED LLNNRTALNE TDDPLDAEDS PVFVPPSSRN  720
VESTYASPLY DPMEDSTSDG ILNIGLGRNT TSKAAELLDL HRDHISSEND SLIHSRGTSS  780
VSGNREQSVP TALTLGSNIY FSSAETDDRP EERHELVVEG QQGLTVETTS KLDSPGKIEV  840
LNGAGFISTG IQNWLSLPPS INSMEMSGQF LNNGFTVSKG RLGLDQSMDD ATSMSQDHDI  900
AQDMDQRGSE DAFFSQDHSI RLCGSDLPHS HLLAPKESSM NGEDQSGIVL TGLHPSSSVN  960
VLGHYGYQTD DIPVDNLNKL PSALESSDAM DADQVSSQVC VNPDHTNDSN TENAGVESNA  1020
KQDLLSSWIE AIVSEAKKEH PPCKSTPLTV GLPDKLLEPK DSDRKTLLET VVPSAVKSPQ  1080
INFASSTLQK VAPKQVTLPS SSREPTRANQ NARHRTWHRG NIASSSSSLH ASQPLGLPPK  1140
LPPKKNDKAQ NSYIRKGNAL IRNPSNGNHP HSSTGHDTQN KLNKPVVRRS MNFVRTADTK  1200
DLANSNISVE RPKTPPLPLH TKSSCPTTLL EPLSQTLQKQ HGHEAEKEDL TGQPKSGVDN  1260
SSIKSAQKSE PSDPSKVVYV RPKSNQLVAA QRQHPIDLVN SPTDKILSLQ APIASDLYLK  1320
KRKNQIVLSS CSPSDGLSTK ETLPAENSNS EEKKDLMIAC SISGIPGVKD RPQKALQTTN  1380
NVGRFSHVWT LNGQQPQRKG FMGSSHMNAF PRILPWKRKI FCKNFRSSHM SNVSSIRIVR  1440
KLLQTRKRDM IYTVSTDGFS LRKSGVLSVG GSSLKWSRSL EKRSQKVNKE ATLALAEVER  1500
RKREKRKRQS LHDKGGNDHQ FESVTGNQLR NSRQSSSDLR KPSTCNEYVR VSKGNQLVRN  1560
PKNVIRMLAS DKVRWSLHTV RSRLAKKQQY CQFFTRFGEC KKPRGKCPYI HDRAKVTICT  1620
KFLKGLCSNT SCKLTHKVLP ERMPDCSYFL RGLCTNIACP YRHVKVNLNA PVCEDFLKGY  1680
CAYGDECHKK HSYVCPVFEA TGECPQGSRC KLHHPKSKVK SKSRRPDFLQ NSSWGRYFDA  1740
SIDHQDETRK VSLDEDEREK PQRVFSDGDL GFISLDDDAD EDVTALDASD DIPLMELDSG  1800
DLSAQTDNLD ALIKPLRIMR TARV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6fbs_C	2e-16	1591	1716	41	168	Cleavage and polyadenylation specificity factor subunit 4
6fuw_C	2e-16	1591	1716	41	168	Cleavage and polyadenylation specificity factor subunit 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1499	1504	RRKREK

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP003573	0.0	AP003573.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0523F01.
GenBank	AP014962	0.0	AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015643042.1	0.0	uncharacterized protein LOC4341610 isoform X1
TrEMBL	A0A0E0AC97	0.0	A0A0E0AC97_9ORYZ; Uncharacterized protein
STRING	OS06T0638000-00	0.0	(Oryza sativa)